Assign ProMisE 2019 — assign_promise2019 • EndoTools

Assign ProMisE 2015 based on POLE, MMR, and p53.

assign_promise2019(mmr_ihc_2, pole_mut, p53)

Arguments

mmr_ihc_2: MMR status determined by 2 IHCs: MSH6 and PMS2
pole_mut: POLE mutation status
p53: p53 IHC

Value

ProMisE 2019 assigned into "POLEmut", "MMRd", "p53abn", or "NSMP/p53wt"

Details

ProMisE 2015 is assigned in the following order:

POLE pathogenic mutations
MMR deficient cases if either of the 2 IHCs MSH6 or PMS2 are absent, among POLE non-pathogenic mutations or wild type cases
p53 IHC wild type or mutated among MMR intact cases

Author

Derek Chiu, Samuel Leung

Examples

promise2019 <- with(emdb, assign_promise2019(mmr_ihc_2, pole_mut, p53))
table(promise2019)
#> promise2019
#>    POLEmut       MMRd     p53abn NSMP/p53wt 
#>         60        142        102        365